Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0806880 | XP_013442308.1 | 96.460 | 113 | 4 | 0 | 1 | 113 | 1 | 113 | 6.74e-67 | 207 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0806880 | sp|O24415|RLA2B_MAIZE | 66.372 | 113 | 38 | 0 | 1 | 113 | 1 | 113 | 2.40e-33 | 115 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0002750 | Msa0806880 | 0.884848 | 1.350377e-71 | -8.615850e-47 |
| Msa0002790 | Msa0806880 | 0.909081 | 8.443983e-82 | -8.615850e-47 |
| Msa0003780 | Msa0806880 | 0.809073 | 2.266173e-50 | -8.615850e-47 |
| Msa0006880 | Msa0806880 | 0.807152 | 5.812861e-50 | -8.615850e-47 |
| Msa0007850 | Msa0806880 | 0.857791 | 1.283014e-62 | -8.615850e-47 |
| Msa0010490 | Msa0806880 | 0.808282 | 3.343745e-50 | -8.615850e-47 |
| Msa0010500 | Msa0806880 | 0.802806 | 4.710857e-49 | -8.615850e-47 |
| Msa0019390 | Msa0806880 | 0.843415 | 1.420712e-58 | -8.615850e-47 |
| Msa0020390 | Msa0806880 | 0.822910 | 1.839647e-53 | -8.615850e-47 |
| Msa0022970 | Msa0806880 | 0.886185 | 4.259709e-72 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0806880 | MtrunA17_Chr5g0421491 | 96.460 | 113 | 4 | 0 | 1 | 113 | 1 | 113 | 6.20e-71 | 207 |
| Msa0806880 | MtrunA17_Chr2g0321121 | 89.381 | 113 | 12 | 0 | 1 | 113 | 1 | 113 | 9.65e-46 | 143 |
| Msa0806880 | MtrunA17_Chr1g0179001 | 73.451 | 113 | 29 | 1 | 1 | 113 | 1 | 112 | 3.51e-28 | 99.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0806880 | AT2G27710.4 | 77.143 | 70 | 16 | 0 | 1 | 70 | 1 | 70 | 3.65e-32 | 108 |
| Msa0806880 | AT3G44590.1 | 65.487 | 113 | 37 | 2 | 1 | 113 | 1 | 111 | 7.91e-31 | 106 |
| Msa0806880 | AT3G44590.2 | 65.487 | 113 | 37 | 2 | 1 | 113 | 1 | 111 | 7.91e-31 | 106 |
| Msa0806880 | AT2G27720.1 | 66.087 | 115 | 37 | 1 | 1 | 113 | 1 | 115 | 4.88e-28 | 99.4 |
| Msa0806880 | AT2G27710.1 | 75.385 | 65 | 16 | 0 | 1 | 65 | 1 | 65 | 1.78e-25 | 92.8 |
| Msa0806880 | AT2G27710.2 | 75.385 | 65 | 16 | 0 | 1 | 65 | 1 | 65 | 1.78e-25 | 92.8 |
| Msa0806880 | AT2G27710.3 | 75.385 | 65 | 16 | 0 | 1 | 65 | 1 | 65 | 1.78e-25 | 92.8 |
| Msa0806880 | AT2G27720.3 | 59.843 | 127 | 37 | 2 | 1 | 113 | 1 | 127 | 1.89e-24 | 90.5 |
| Msa0806880 | AT3G28500.1 | 55.556 | 117 | 46 | 4 | 1 | 113 | 1 | 115 | 3.73e-24 | 89.4 |
| Msa0806880 | AT2G27720.2 | 57.692 | 130 | 38 | 2 | 1 | 113 | 1 | 130 | 3.11e-23 | 87.4 |
Find 48 sgRNAs with CRISPR-Local
Find 187 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATAAATTAACCAATAGT+AGG | 0.326036 | 5_3:-27394100 | None:intergenic |
| AAAGTGTTTGACCCTACTAT+TGG | 0.358905 | 5_3:+27394088 | Msa0806880:three_prime_UTR |
| AAATAAATTAACCAATAGTA+GGG | 0.556583 | 5_3:-27394099 | None:intergenic |
| AACAAAGAAACTTACATCAT+CGG | 0.541190 | 5_3:-27393825 | None:intergenic |
| AAGTTGGCTTCAGTGCCATC+TGG | 0.501913 | 5_3:+27393698 | Msa0806880:CDS |
| ACCAGCTGCCGAAGCAAAGG+AGG | 0.585812 | 5_3:+27393775 | Msa0806880:CDS |
| ACGCACTTGGCTGGTTAGAT+TGG | 0.338544 | 5_3:-27392922 | None:intergenic |
| ACTTCTAACTGTCTAATGTA+AGG | 0.467863 | 5_3:-27394205 | None:intergenic |
| AGAGGTAAGAACCTGAGGCG+AGG | 0.656993 | 5_3:-27393093 | None:intergenic |
| AGCAGCTGCAGCACCTCCAC+CGG | 0.469171 | 5_3:-27393747 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAAATGAAGGGCAAAAAACA+AGG | + | chr5_3:27392762-27392781 | Msa0806880:five_prime_UTR | 30.0% | |
| AAATGAAGGGCAAAAAACAA+GGG | + | chr5_3:27392763-27392782 | Msa0806880:five_prime_UTR | 30.0% | |
| TGGAAACACAGAAAAGATAA+AGG | + | chr5_3:27392792-27392811 | Msa0806880:five_prime_UTR | 30.0% | |
| ACTTCTAACTGTCTAATGTA+AGG | - | chr5_3:27394208-27394227 | None:intergenic | 30.0% | |
| AAAATGAAGGGCAAAAAACA+AGG | + | chr5_3:27392762-27392781 | Msa0806880:five_prime_UTR | 30.0% | |
| AAATGAAGGGCAAAAAACAA+GGG | + | chr5_3:27392763-27392782 | Msa0806880:five_prime_UTR | 30.0% | |
| TGGAAACACAGAAAAGATAA+AGG | + | chr5_3:27392792-27392811 | Msa0806880:five_prime_UTR | 30.0% | |
| ACTTCTAACTGTCTAATGTA+AGG | - | chr5_3:27394208-27394227 | None:intergenic | 30.0% | |
| GAATGAAAAACATACGCACT+TGG | - | chr5_3:27392938-27392957 | None:intergenic | 35.0% | |
| GGAAAAGAAGGTTGAAGAAA+AGG | + | chr5_3:27393796-27393815 | Msa0806880:CDS | 35.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_3 | gene | 27392724 | 27394251 | 27392724 | ID=Msa0806880;Name=Msa0806880 |
| chr5_3 | mRNA | 27392724 | 27394251 | 27392724 | ID=Msa0806880-mRNA-1;Parent=Msa0806880;Name=Msa0806880-mRNA-1;_AED=0.01;_eAED=0.01;_QI=217|1|1|1|1|1|4|301|113 |
| chr5_3 | exon | 27392724 | 27392938 | 27392724 | ID=Msa0806880-mRNA-1:exon:9736;Parent=Msa0806880-mRNA-1 |
| chr5_3 | exon | 27393014 | 27393103 | 27393014 | ID=Msa0806880-mRNA-1:exon:9737;Parent=Msa0806880-mRNA-1 |
| chr5_3 | exon | 27393606 | 27393832 | 27393606 | ID=Msa0806880-mRNA-1:exon:9738;Parent=Msa0806880-mRNA-1 |
| chr5_3 | exon | 27393924 | 27394251 | 27393924 | ID=Msa0806880-mRNA-1:exon:9739;Parent=Msa0806880-mRNA-1 |
| chr5_3 | five_prime_UTR | 27392724 | 27392938 | 27392724 | ID=Msa0806880-mRNA-1:five_prime_utr;Parent=Msa0806880-mRNA-1 |
| chr5_3 | five_prime_UTR | 27393014 | 27393015 | 27393014 | ID=Msa0806880-mRNA-1:five_prime_utr;Parent=Msa0806880-mRNA-1 |
| chr5_3 | CDS | 27393016 | 27393103 | 27393016 | ID=Msa0806880-mRNA-1:cds;Parent=Msa0806880-mRNA-1 |
| chr5_3 | CDS | 27393606 | 27393832 | 27393606 | ID=Msa0806880-mRNA-1:cds;Parent=Msa0806880-mRNA-1 |
| chr5_3 | CDS | 27393924 | 27393950 | 27393924 | ID=Msa0806880-mRNA-1:cds;Parent=Msa0806880-mRNA-1 |
| chr5_3 | three_prime_UTR | 27393951 | 27394251 | 27393951 | ID=Msa0806880-mRNA-1:three_prime_utr;Parent=Msa0806880-mRNA-1 |
| Gene Sequence |
>Msa0806880 ATGAAGATCATCGCAGCTTATTTGTTGGCTGTTTTGGGCGGTAACGCTGCCCCTTCCGCTGATGATATCAAAACCATCCTCGCCTCAGTTGGAGTTGAAGCCGAGGACTCAAATGTTGAGTTGCTTTTGAGTGAAGTCAAGGGCAAGGATTTTGCCGAGCTAATTGCTAGTGGCAGAGAGAAGTTGGCTTCAGTGCCATCTGGTGGAGGTGCTGTGGCTGTTGCTGCTTCCGGTGGAGGTGCTGCAGCTGCTGCTGCACCAGCTGCCGAAGCAAAGGAGGAAAAGAAGGTTGAAGAAAAGGAAGAATCCGATGATGACATGGGATTTAGCTTGTTCGACTAG |
| Protein sequence |
>Msa0806880 MKIIAAYLLAVLGGNAAPSADDIKTILASVGVEAEDSNVELLLSEVKGKDFAELIASGREKLASVPSGGGAVAVAASGGGAAAAAAPAAEAKEEKKVEEKEESDDDMGFSLFD* |
